bdsa-react-components 0.1.19 → 0.1.21

package/dist/components/SlideViewer/SlideViewer.types.d.ts

@@ -0,0 +1,175 @@
+import { FeatureCollection } from 'geojson';
+import { Viewer as OpenSeadragonViewer, Options as OpenSeadragonOptions } from 'openseadragon';
+import { default as React } from 'react';
+
+export interface SlideImageInfo {
+    /** Image ID from DSA (used if dziUrl is not provided) */
+    imageId?: string | number;
+    /** Image width in pixels (used if dziUrl is not provided) */
+    width?: number;
+    /** Image height in pixels (used if dziUrl is not provided) */
+    height?: number;
+    /** Tile width (used if dziUrl is not provided) */
+    tileWidth?: number;
+    /** Number of zoom levels (used if dziUrl is not provided) */
+    levels?: number;
+    /** Base URL for DSA tile server (used if dziUrl is not provided) */
+    baseUrl?: string;
+    /** DZI descriptor URL (e.g., 'http://bdsa.pathology.emory.edu:8080/api/v1/item/{itemId}/tiles/dzi.dzi')
+     *  If provided, this will be used instead of manually constructing tile URLs */
+    dziUrl?: string;
+}
+export interface AnnotationFeature {
+    /** Unique identifier for the annotation */
+    id?: string | number;
+    /** Left coordinate in pixels */
+    left: number;
+    /** Top coordinate in pixels */
+    top: number;
+    /** Width in pixels */
+    width: number;
+    /** Height in pixels */
+    height: number;
+    /** Optional color for the annotation stroke */
+    color?: string;
+    /** Optional group identifier */
+    group?: string | number;
+    /** Optional label */
+    label?: string;
+    /** Type of annotation (rectangle, polyline, etc.) */
+    annotationType?: 'rectangle' | 'polyline';
+    /** Points array for polyline annotations */
+    points?: Array<[number, number]>;
+    /** Whether polyline is closed */
+    closed?: boolean;
+    /** Fill color for polyline */
+    fillColor?: string;
+    /** Store full element for rendering */
+    element?: unknown;
+    /** Optional additional properties */
+    [key: string]: unknown;
+}
+export interface AnnotationInfoProperty {
+    /** Key to access the property value from the annotation document */
+    key: string;
+    /** Display label for this property */
+    label: string;
+    /** Optional formatter function to transform the value before display */
+    formatter?: (value: unknown, doc: {
+        id: string | number;
+        elementCount: number;
+        totalPoints: number;
+        types: string[];
+        filteredCount?: number;
+        filteredPoints?: number;
+    }) => string | React.ReactNode;
+    /** Whether to display this property (default: true) */
+    show?: boolean;
+}
+export interface AnnotationInfoConfig {
+    /** Properties to display for each fetched annotation document */
+    documentProperties?: AnnotationInfoProperty[];
+    /** Whether to show the "Fetched from DSA API" section */
+    showFetchedSection?: boolean;
+    /** Whether to show the "Provided Annotations" section */
+    showProvidedSection?: boolean;
+    /** Whether to show the "Total Rendered" section */
+    showTotalSection?: boolean;
+    /** Custom header text */
+    headerText?: string;
+}
+export interface AnnotationCache {
+    get(annotationId: string | number, versionHash?: string): Promise<unknown | null>;
+    set(annotationId: string | number, data: unknown, options?: {
+        ttl?: number;
+        versionHash?: string;
+    }): Promise<void>;
+    has(annotationId: string | number, versionHash?: string): Promise<boolean>;
+    delete(annotationId: string | number): Promise<void>;
+    clear(): Promise<void>;
+    getStats?(): Promise<{
+        size: number;
+        hits?: number;
+        misses?: number;
+        hitRate?: number;
+    }>;
+}
+export interface SlideViewerProps {
+    /** Image information for the slide to display */
+    imageInfo: SlideImageInfo;
+    /** Annotations to render on the slide (array of rectangles or GeoJSON) */
+    annotations?: AnnotationFeature[] | FeatureCollection;
+    /** Annotation IDs to fetch from DSA API (baseUrl/annotation/{id}) */
+    annotationIds?: (string | number)[];
+    /** Base URL for DSA API (e.g., 'http://bdsa.pathology.emory.edu:8080/api/v1') */
+    apiBaseUrl?: string;
+    /** Callback when viewer is ready */
+    onViewerReady?: (viewer: OpenSeadragonViewer) => void;
+    /** Callback when annotation is clicked */
+    onAnnotationClick?: (annotation: AnnotationFeature) => void;
+    /** Default stroke color for annotations */
+    defaultAnnotationColor?: string;
+    /** Stroke width for annotations */
+    strokeWidth?: number;
+    /** Additional OpenSeadragon configuration options */
+    osdOptions?: OpenSeadragonOptions;
+    /** Custom CSS class name */
+    className?: string;
+    /** Height for the viewer container (e.g., '600px', '100vh', '100%').
+     *  Required: OpenSeadragon needs an explicit height to initialize properly. */
+    height?: string | number;
+    /** Width for the viewer container (defaults to '100%') */
+    width?: string | number;
+    /** Display information about loaded annotation documents */
+    showAnnotationInfo?: boolean;
+    /** Configuration for customizing the annotation info panel display */
+    annotationInfoConfig?: AnnotationInfoConfig;
+    /** Maximum number of points allowed per annotation element (default: 10000).
+     *  Annotations exceeding this limit will be skipped with a warning. */
+    maxPointsPerAnnotation?: number;
+    /** Maximum total number of points allowed across all annotations (default: 100000).
+     *  If exceeded, annotations will be filtered starting from the largest ones. */
+    maxTotalPoints?: number;
+    /** Custom fetch function for API requests. Useful for adding authentication headers.
+     *  If not provided, uses the default `fetch`. The function should match the Fetch API signature. */
+    fetchFn?: (url: string, options?: RequestInit) => Promise<Response>;
+    /** Custom headers to add to all API requests. Merged with fetchFn headers if both are provided. */
+    apiHeaders?: HeadersInit;
+    /** Authentication token to use for requests. Can be extracted from apiHeaders automatically if not provided. */
+    authToken?: string;
+    /** If true, appends the authentication token as a query parameter (?token=...) to all requests (DZI, tiles, annotations).
+     *  This is required for some DSA servers that validate tokens via query parameters instead of (or in addition to) headers.
+     *  Default: false */
+    tokenQueryParam?: boolean;
+    /** Show annotation controls panel in the sidebar (default: false) */
+    showAnnotationControls?: boolean;
+    /** Default opacity for all annotations (0-1, default: 1) */
+    defaultAnnotationOpacity?: number;
+    /** Map of annotation IDs to their individual opacity values (0-1). Overrides defaultAnnotationOpacity for specific annotations. */
+    annotationOpacities?: Map<string | number, number> | Record<string, number>;
+    /** Map of annotation IDs to their visibility state. If provided, only visible annotations will be rendered/updated. */
+    visibleAnnotations?: Map<string | number, boolean> | Record<string, boolean>;
+    /** Callback when annotation has finished loading and rendering. Called with the annotation ID. */
+    onAnnotationReady?: (annotationId: string | number) => void;
+    /** Optional pull-through cache for annotation documents. Acts as a cache-aside proxy:
+     *  1. Checks cache first on fetch requests
+     *  2. On cache miss, fetches from API and stores in cache
+     *  3. On cache hit, returns cached data immediately (no API call)
+     *  If not provided, automatically creates an IndexedDBAnnotationCache. Set to `null` to disable caching. */
+    annotationCache?: AnnotationCache | null;
+    /** If true, disables caching entirely (equivalent to annotationCache={null}). Useful for debugging or forcing fresh fetches. */
+    disableCache?: boolean;
+    /** If true, disables the IntersectionObserver visibility check and initializes immediately.
+     *  Useful for cases where you want immediate initialization regardless of viewport visibility.
+     *  Default: false (visibility check enabled for better performance and error prevention) */
+    disableVisibilityCheck?: boolean;
+    /** Optional map of annotation headers (from /annotation?itemId=... endpoint) keyed by annotation ID.
+     *  If provided, used to compute version hashes for cache invalidation when annotations change on the server.
+     *  Should contain the metadata objects returned from AnnotationManager's annotation search endpoint.
+     *  Typically obtained from AnnotationManager: `annotations.map(ann => [ann._id, ann])` or similar.
+     *  If not provided, cache will work but version-based invalidation will be disabled. */
+    annotationHeaders?: Map<string | number, unknown> | Record<string, unknown>;
+    /** If true, enables debug logging to console. Default: false */
+    debug?: boolean;
+}
+//# sourceMappingURL=SlideViewer.types.d.ts.map

package/dist/components/SlideViewer/SlideViewer.types.d.ts.map

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package/dist/components/SlideViewer/SlideViewer.utils.d.ts

@@ -0,0 +1,46 @@
+import { AnnotationInfoConfig, AnnotationFeature } from './SlideViewer.types';
+
+/**
+ * Compute version hash from annotation header for cache invalidation
+ * Extracts version-relevant fields and computes a hash
+ */
+export declare function computeVersionHash(header: Record<string, unknown>): string;
+/**
+ * Extract authentication token from authToken prop or apiHeaders
+ */
+export declare function extractToken(authToken?: string, apiHeaders?: HeadersInit): string | undefined;
+/**
+ * Append authentication token as query parameter to a URL
+ */
+export declare function appendTokenToUrl(url: string, token?: string): string;
+/**
+ * Helper function to apply opacity to a color string
+ * Always returns rgba format for consistency, even at 100% opacity
+ */
+export declare function applyOpacity(color: string, opacity: number): string;
+/**
+ * Parse annotation document into AnnotationFeature array
+ */
+export interface ParseAnnotationResult {
+    features: AnnotationFeature[];
+    docInfo: {
+        id: string | number;
+        elementCount: number;
+        totalPoints: number;
+        types: string[];
+        filteredCount?: number;
+        filteredPoints?: number;
+    };
+    filteredCount: number;
+    filteredPoints: number;
+}
+export declare function parseAnnotationDocument(annotationDoc: unknown, annotationId: string | number, defaultAnnotationColor: string, maxPointsPerAnnotation: number): ParseAnnotationResult;
+/**
+ * Filter annotations by total point limit
+ */
+export declare function filterAnnotationsByTotalPoints(annotations: AnnotationFeature[], maxTotalPoints: number): AnnotationFeature[];
+/**
+ * Default configuration for annotation info panel
+ */
+export declare const DEFAULT_ANNOTATION_INFO_CONFIG: AnnotationInfoConfig;
+//# sourceMappingURL=SlideViewer.utils.d.ts.map

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package/dist/components/SlideViewer/hooks/index.d.ts

@@ -0,0 +1,5 @@
+export { useAnnotationFetching, type UseAnnotationFetchingResult } from './useAnnotationFetching';
+export { useAnnotationRendering } from './useAnnotationRendering';
+export { useAnnotationOpacity } from './useAnnotationOpacity';
+export { useSlideViewerInitialization } from './useSlideViewerInitialization';
+//# sourceMappingURL=index.d.ts.map

package/dist/components/SlideViewer/hooks/index.d.ts.map

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package/dist/components/SlideViewer/hooks/useAnnotationFetching.d.ts

@@ -0,0 +1,23 @@
+import { default as React } from 'react';
+import { AnnotationFeature } from '../SlideViewer.types';
+
+export interface UseAnnotationFetchingResult {
+    fetchedAnnotations: AnnotationFeature[];
+    annotationDocuments: Array<{
+        id: string | number;
+        elementCount: number;
+        totalPoints: number;
+        types: string[];
+        filteredCount?: number;
+        filteredPoints?: number;
+    }>;
+}
+export declare function useAnnotationFetching(annotationIds: (string | number)[] | undefined, apiBaseUrl: string | undefined, defaultAnnotationColor: string, maxPointsPerAnnotation: number, maxTotalPoints: number, wrappedFetch: (url: string, options?: RequestInit) => Promise<Response>, cache: {
+    get(annotationId: string | number, versionHash?: string): Promise<unknown | null>;
+    set(annotationId: string | number, data: unknown, options?: {
+        ttl?: number;
+        versionHash?: string;
+    }): Promise<void>;
+    delete(annotationId: string | number): Promise<void>;
+} | null, annotationHeaders: Map<string | number, unknown> | Record<string, unknown> | undefined, apiHeaders: HeadersInit | undefined, isMountedRef: React.MutableRefObject<boolean>, debug: boolean): UseAnnotationFetchingResult;
+//# sourceMappingURL=useAnnotationFetching.d.ts.map

package/dist/components/SlideViewer/hooks/useAnnotationFetching.d.ts.map

@@ -0,0 +1 @@
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package/dist/components/SlideViewer/hooks/useAnnotationOpacity.d.ts

@@ -0,0 +1,8 @@
+import { PaperOverlay, AnnotationToolkit } from 'osd-paperjs-annotation';
+import { Viewer as OpenSeadragonViewer } from 'openseadragon';
+
+/**
+ * Hook to handle annotation opacity updates without full re-renders
+ */
+export declare function useAnnotationOpacity(viewer: OpenSeadragonViewer | null, overlay: PaperOverlay | null, toolkit: AnnotationToolkit | null, annotationOpacity: number, annotationOpacities: Map<string | number, number> | Record<string, number> | undefined, visibleAnnotations: Map<string | number, boolean> | Record<string, boolean> | undefined, defaultAnnotationOpacity: number, defaultAnnotationColor: string, safeDrawPaperView: (paperScope: PaperOverlay['paperScope']) => void): void;
+//# sourceMappingURL=useAnnotationOpacity.d.ts.map

package/dist/components/SlideViewer/hooks/useAnnotationOpacity.d.ts.map

@@ -0,0 +1 @@
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package/dist/components/SlideViewer/hooks/useAnnotationRendering.d.ts

@@ -0,0 +1,14 @@
+import { default as React } from 'react';
+import { AnnotationFeature } from '../SlideViewer.types';
+import { PaperOverlay, AnnotationToolkit } from 'osd-paperjs-annotation';
+import { Viewer as OpenSeadragonViewer } from 'openseadragon';
+import { DebugLogger } from '../../../utils/debugLog';
+
+/**
+ * Hook to handle annotation rendering in Paper.js
+ */
+export declare function useAnnotationRendering(viewer: OpenSeadragonViewer | null, overlay: PaperOverlay | null, toolkit: AnnotationToolkit | null, parsedManualAnnotations: AnnotationFeature[], fetchedAnnotations: AnnotationFeature[], annotationsKey: string, fetchedAnnotationsKey: string, annotationOpacity: number, annotationOpacities: Map<string | number, number> | Record<string, number> | undefined, visibleAnnotations: Map<string | number, boolean> | Record<string, boolean> | undefined, defaultAnnotationColor: string, strokeWidth: number, onAnnotationClickRef: React.MutableRefObject<((annotation: AnnotationFeature) => void) | undefined>, onAnnotationReady: ((annotationId: string | number) => void) | undefined, tiledImageRef: React.MutableRefObject<{
+    addPaperItem: (item: unknown) => void;
+    paperItems?: unknown[];
+} | null>, lastRenderedAnnotationsRef: React.MutableRefObject<string>, safeDrawPaperView: (paperScope: PaperOverlay['paperScope']) => void, debugLog: DebugLogger): void;
+//# sourceMappingURL=useAnnotationRendering.d.ts.map

package/dist/components/SlideViewer/hooks/useAnnotationRendering.d.ts.map

@@ -0,0 +1 @@
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package/dist/components/SlideViewer/hooks/useSlideViewerInitialization.d.ts

@@ -0,0 +1,21 @@
+import { default as React } from 'react';
+import { PaperOverlay, AnnotationToolkit } from 'osd-paperjs-annotation';
+import { Viewer as OpenSeadragonViewer, Options as OpenSeadragonOptions } from 'openseadragon';
+import { DebugLogger } from '../../../utils/debugLog';
+
+/**
+ * Hook to handle OpenSeadragon viewer initialization
+ */
+export declare function useSlideViewerInitialization(containerRef: React.RefObject<HTMLDivElement>, isVisible: boolean, isMountedRef: React.MutableRefObject<boolean>, isInitializedRef: React.MutableRefObject<boolean>, lastImageKeyRef: React.MutableRefObject<string>, viewerIdRef: React.MutableRefObject<string>, imageKey: string, processedDziUrl: string | null | undefined, imageInfo: {
+    imageId?: string | number;
+    width?: number;
+    height?: number;
+    tileWidth?: number;
+    levels?: number;
+    baseUrl?: string;
+    dziUrl?: string;
+}, token: string | null | undefined, tokenQueryParam: boolean, apiHeaders: HeadersInit | undefined, osdOptions: OpenSeadragonOptions | undefined, onViewerReadyRef: React.MutableRefObject<((viewer: OpenSeadragonViewer) => void) | undefined>, setViewer: (viewer: OpenSeadragonViewer | null) => void, setOverlay: (overlay: PaperOverlay | null) => void, setToolkit: (toolkit: AnnotationToolkit | null) => void, tiledImageRef: React.MutableRefObject<{
+    addPaperItem: (item: unknown) => void;
+    paperItems?: unknown[];
+} | null>, appendTokenToUrl: (url: string, token: string) => string, debugLog: DebugLogger): void;
+//# sourceMappingURL=useSlideViewerInitialization.d.ts.map

package/dist/components/SlideViewer/hooks/useSlideViewerInitialization.d.ts.map

@@ -0,0 +1 @@
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package/dist/components/ThumbnailGrid/ThumbnailGrid.d.ts

@@ -0,0 +1,55 @@
+import { default as React } from 'react';
+import { Item } from '../../utils/itemUtils';
+
+export interface ThumbnailGridProps {
+    /** DSA folder ID to fetch items from */
+    folderId?: string;
+    /** Array of specific image IDs to display */
+    imageIds?: string[];
+    /** Pre-loaded items array (takes precedence) */
+    items?: Item[];
+    /** DSA API base URL (e.g., "http://bdsa.pathology.emory.edu:8080/api/v1") */
+    apiBaseUrl: string;
+    /** Backend API base URL for fetching items (optional, falls back to apiBaseUrl if not provided) */
+    backendApiBaseUrl?: string;
+    /** Headers for API requests (auth, etc.) */
+    apiHeaders?: HeadersInit;
+    /** Authentication token to use for requests. Can be extracted from apiHeaders automatically if not provided. */
+    authToken?: string;
+    /** If true, appends the authentication token as a query parameter (?token=...) to thumbnail URLs.
+     *  This is required for some DSA servers that validate tokens via query parameters instead of (or in addition to) headers.
+     *  Default: false */
+    tokenQueryParam?: boolean;
+    /** Custom fetch function for API requests */
+    fetchFn?: (url: string, options?: RequestInit) => Promise<Response>;
+    /** Initial items per page estimate (default: 12) */
+    itemsPerPage?: number;
+    /** Thumbnail size preset (default: 'l') */
+    thumbnailSize?: 's' | 'm' | 'l' | 'xl';
+    /** Thumbnail image size in pixels (default: 512) - Note: Currently not used, DSA API handles size automatically */
+    thumbnailImageSize?: number;
+    /** Display name for model (if viewing model training images) */
+    modelName?: string;
+    /** Dataset split information */
+    modelDatasetInfo?: {
+        train: string[];
+        val: string[];
+        test: string[];
+    };
+    /** Called when items are loaded/filtered */
+    onItemsLoaded?: (itemIds: string[]) => void;
+    /** Function to determine dataset type */
+    getDatasetType?: (itemId: string) => 'train' | 'val' | 'test' | null;
+    /** Callback when thumbnail is clicked */
+    onThumbnailClick?: (item: Item) => void;
+    /** Debug mode for logging */
+    debug?: boolean;
+    /** Custom CSS class */
+    className?: string;
+}
+/**
+ * Basic thumbnail grid component that displays static thumbnail images.
+ * This is a lightweight alternative to FolderThumbnailBrowser that doesn't use OpenSeadragon.
+ */
+export declare const ThumbnailGrid: React.ForwardRefExoticComponent<ThumbnailGridProps & React.RefAttributes<HTMLDivElement>>;
+//# sourceMappingURL=ThumbnailGrid.d.ts.map

package/dist/components/ThumbnailGrid/ThumbnailGrid.d.ts.map

@@ -0,0 +1 @@
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package/dist/components/ThumbnailViewer/ThumbnailViewer.d.ts

@@ -0,0 +1,45 @@
+import { default as React } from 'react';
+import { Item } from '../../utils/itemUtils';
+
+/**
+ * Update opacity for a specific annotation across all thumbnails
+ */
+export declare function updateThumbnailOpacity(annotationId: string, opacity: number): void;
+/**
+ * Get current opacity for an annotation
+ */
+export declare function getThumbnailOpacity(annotationId: string): number;
+/**
+ * Clear all opacity settings
+ */
+export declare function clearThumbnailOpacities(): void;
+export interface ThumbnailViewerProps {
+    /** DSA item object with _id, name, meta, etc. */
+    item: Item;
+    /** Width of thumbnail in pixels */
+    viewerWidth: number;
+    /** DSA API base URL */
+    apiBaseUrl: string;
+    /** Backend API base URL for annotation caching (optional) */
+    backendApiBaseUrl?: string;
+    /** Headers for API requests */
+    apiHeaders?: HeadersInit;
+    /** Name of currently selected annotation */
+    selectedAnnotationName?: string;
+    /** Map of itemId -> annotationId */
+    annotationNameToIds?: Map<string, string> | Record<string, string>;
+    /** Function to determine dataset type (train/val/test) */
+    getDatasetType?: (itemId: string) => 'train' | 'val' | 'test' | null;
+    /** Show OpenSeadragon navigation controls (zoom, home, fullscreen) (default: false) */
+    showViewerControls?: boolean;
+    /** Custom fetch function for API requests */
+    fetchFn?: (url: string, options?: RequestInit) => Promise<Response>;
+    /** Debug mode for logging */
+    debug?: boolean;
+}
+/**
+ * Individual thumbnail component that wraps SlideViewer for displaying a single DSA item
+ * with optional annotation overlay.
+ */
+export declare const ThumbnailViewer: React.NamedExoticComponent<ThumbnailViewerProps>;
+//# sourceMappingURL=ThumbnailViewer.d.ts.map

package/dist/components/ThumbnailViewer/ThumbnailViewer.d.ts.map

@@ -0,0 +1 @@
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